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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
3q60ATPRhoptry protein 5B

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
3q60ATPRhoptry protein 5B/1.000
5dozNDPJamJ/0.502
2yac937Serine/threonine-protein kinase PLK12.7.11.210.487
2jc6QPPCalcium/calmodulin-dependent protein kinase type 1D2.7.11.170.486
2owb626Serine/threonine-protein kinase PLK12.7.11.210.484
4aw1ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.484
1iyzNDPProbable quinone oxidoreductase/0.483
2a19ANPInterferon-induced, double-stranded RNA-activated protein kinase2.7.11.10.483
4kf1HT5Aryldialkylphosphatase3.1.8.10.481
3nx4NAPPutative oxidoreductase/0.480
2pupADPMethylthioribose kinase2.7.1.1000.477
3fzsB96Protein-tyrosine kinase 2-beta2.7.10.20.477
2puiADPMethylthioribose kinase2.7.1.1000.475
3rl35GPMetallophosphoesterase MPPED23.10.475
3hrfATP3-phosphoinositide-dependent protein kinase 12.7.11.10.474
1zaoATPRIO-type serine/threonine-protein kinase Rio22.7.11.10.473
2bakAQZMitogen-activated protein kinase 14/0.473
4a9yAQZMitogen-activated protein kinase 14/0.473
4ej7ATPAminoglycoside 3'-phosphotransferase AphA1-IAB/0.470
4klnAGSTransitional endoplasmic reticulum ATPase3.6.4.60.470
1uu7BI23-phosphoinositide-dependent protein kinase 12.7.11.10.467
2zdt46CMitogen-activated protein kinase 102.7.11.240.467
4ztvTA7Anthranilate phosphoribosyltransferase/0.467
4bkjSTIEpithelial discoidin domain-containing receptor 12.7.10.10.466
4elg52JDihydrofolate reductase/0.465
2phkATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform2.7.11.190.464
4cavMYAGlycylpeptide N-tetradecanoyltransferase2.3.1.970.464
4d04NAPPhenylacetone monooxygenase1.14.13.920.464
2in6839Wee1-like protein kinase2.7.10.20.463
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.463
3gc9B45Mitogen-activated protein kinase 112.7.11.240.463
3hu1AGSTransitional endoplasmic reticulum ATPase3.6.4.60.463
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.463
4lv5ADPRhoptry protein 5B/0.463
4zseANPEpidermal growth factor receptor2.7.10.10.463
2pbwDOQGlutamate receptor ionotropic, kainate 1/0.462
3zvmADPBifunctional polynucleotide phosphatase/kinase2.7.1.780.462
4hy6FJ1Heat shock protein HSP 90-alpha/0.462
4lv8ADPRhoptry protein 5 C/0.462
4oztP1AEcdysone receptor, putative/0.462
1bzfTMQDihydrofolate reductase1.5.1.30.460
1ybmNAPUncharacterized protein At5g02240/0.460
4a4o664Serine/threonine-protein kinase PLK12.7.11.210.460
1uy6PU3Heat shock protein HSP 90-alpha/0.459
2chw039Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.459
2ewaSB2Mitogen-activated protein kinase 14/0.459
3czr3CZCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.459
3fzfATPHeat shock cognate 71 kDa protein/0.459
3jynNDPQuinone oxidoreductase/0.459
3lmiATPMyosin heavy chain kinase A2.7.11.70.459
4fewPP2Aminoglycoside 3'-phosphotransferase AphA1-IAB/0.459
1r8qAFBCytohesin-2/0.458
1r8qAFBADP-ribosylation factor 1/0.458
2hs1017Protease/0.458
3biy01KHistone acetyltransferase p300/0.458
3f03FMNPentaerythritol tetranitrate reductase/0.458
3hu2AGSTransitional endoplasmic reticulum ATPase3.6.4.60.458
1phkATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform2.7.11.190.457
1xq6NAPUncharacterized protein At5g02240/0.457
2oji33AMitogen-activated protein kinase 12.7.11.240.457
3cqeP91Wee1-like protein kinase2.7.10.20.457
3i6oGR6Gag-Pol polyprotein3.4.23.160.457
1szcCNANAD-dependent protein deacetylase HST23.5.10.456
2zrzFNRIsopentenyl-diphosphate delta-isomerase/0.456
4ug71EVNitric oxide synthase oxygenase1.14.13.1650.456
1dghNDPCatalase1.11.1.60.455
1q8yADPSerine/threonine-protein kinase SKY12.7.11.10.455
2xf3J01Uncharacterized protein/0.455
3ba6AN2Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.455
3gb4D3MDdmC/0.455
3n10CMPAdenylate cyclase 2/0.455
3x0a5GPPhosphatidylinositol 5-phosphate 4-kinase type-2 beta2.7.1.1490.455
4bqyFNTEgl nine homolog 1/0.455
5aqzSGVHeat shock 70 kDa protein 1A/0.455
1h1wATP3-phosphoinositide-dependent protein kinase 12.7.11.10.454
2b9fADPMitogen-activated protein kinase FUS32.7.11.240.454
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.454
2g97DGBNicotinamide phosphoribosyltransferase2.4.2.120.454
1o6rR19Squalene--hopene cyclase4.2.1.1290.453
4btjADPTau-tubulin kinase 12.7.11.10.453
4gki0JNAminoglycoside 3'-phosphotransferase AphA1-IAB/0.453
1b39ATPCyclin-dependent kinase 22.7.11.220.452
2icxUTPUTP--glucose-1-phosphate uridylyltransferase 22.7.7.90.452
3b04OOPIsopentenyl-diphosphate delta-isomerase/0.452
4a06ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.452
4xcvNDPProbable hydroxyacid dehydrogenase protein/0.452
4y6nUPGGlucosyl-3-phosphoglycerate synthase2.4.1.2660.452
4ysjADPCalmodulin-like domain protein kinase/0.452
1f8gNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.451
1uvrBI83-phosphoinositide-dependent protein kinase 12.7.11.10.451
1uy8PU5Heat shock protein HSP 90-alpha/0.451
3pm9FADPutative oxidoreductase/0.451
3w551FMMitogen-activated protein kinase 12.7.11.240.451
4a4l939Serine/threonine-protein kinase PLK12.7.11.210.451
4ftr5HKSerine/threonine-protein kinase Chk12.7.11.10.451
4nh82LCHeat shock protein HSP 90-alpha/0.451
4s33ANPMitogen-activated protein kinase 12.7.11.240.451
4u0mGTPCyclic GMP-AMP synthase/0.451
1ejiTHFSerine hydroxymethyltransferase, cytosolic/0.450
1i2cUPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.450
1i58ACPChemotaxis protein CheA2.7.13.30.450
1nvsUCMSerine/threonine-protein kinase Chk12.7.11.10.450
1w06W05Isopenicillin N synthase1.21.3.10.450
2o7pNAPRiboflavin biosynthesis protein RibD/0.450
2od7A1RNAD-dependent protein deacetylase HST23.5.10.450
2r0cFADPutative FAD-monooxygenase/0.450
3jsuKA5Bifunctional dihydrofolate reductase-thymidylate synthase/0.450
3p62FMNPentaerythritol tetranitrate reductase/0.450
3qaaG04Gag-Pol polyprotein3.4.23.160.450
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.450
4at0FADPossible succinate dehydrogenase/0.450
4i6f1C7Serine/threonine-protein kinase PLK22.7.11.210.450
4jr7GNPCasein kinase II subunit alpha2.7.11.10.450
4qnyANPMitogen activated protein kinase, putative/0.450
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.450
1dajMOTDihydrofolate reductase1.5.1.30.449
1uymPU3Heat shock protein HSP 90-beta/0.449
2hq9FADMll6688 protein/0.449
2idkC2FGlycine N-methyltransferase2.1.1.200.449
3bi6396Wee1-like protein kinase2.7.10.20.449
3o0iP54Heat shock protein HSP 90-alpha/0.449
4rrvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.449
5f2rACP78 kDa glucose-regulated protein/0.449
5uviZMAAdenosine receptor A2a/0.449
1vafARRNitric oxide synthase, inducible1.14.13.390.448
1z0dGDPRas-related protein Rab-5C/0.448
2iw5FADLysine-specific histone demethylase 1A10.448
2xauADPPre-mRNA-splicing factor ATP-dependent RNA helicase PRP433.6.4.130.448
3bu5ATPInsulin receptor2.7.10.10.448
3d20017Gag-Pol polyprotein3.4.23.160.448
3gkjHC3Niemann-Pick C1 protein/0.448
3mqe416Prostaglandin G/H synthase 21.14.99.10.448
3qcy3Q33-phosphoinositide-dependent protein kinase 12.7.11.10.448
3w6uNAP6-phosphogluconate dehydrogenase, NAD-binding protein/0.448
4dk70KSOxysterols receptor LXR-beta/0.448
4fyo0VFTyrosine-protein kinase SYK2.7.10.20.448
4j6bPLOCytochrome P450 monooxygenase/0.448
4u0sADPAdenosine monophosphate-protein transferase FICD2.7.7.n10.448
1i59ANPChemotaxis protein CheA2.7.13.30.447
1lcoPPYCytochrome b2, mitochondrial1.1.2.30.447
2ga9AGSPoly(A) polymerase catalytic subunit2.7.7.190.447
2w5aADPSerine/threonine-protein kinase Nek22.7.11.10.447
3b05FNRIsopentenyl-diphosphate delta-isomerase/0.447
3ol5SAWCamphor 5-monooxygenase1.14.15.10.447
3oriAGSSerine/threonine protein kinase/0.447
3tm5SFGUncharacterized protein/0.447
3ziaADPATP synthase subunit beta, mitochondrial3.6.3.140.447
4a2bAGSCell division protein FtsA/0.447
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.447
5dp2NAPCurF/0.447
5e92ANPTGF-beta receptor type-22.7.11.300.447
1pkgADPMast/stem cell growth factor receptor Kit2.7.10.10.446
1rywEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.446
1uykPUXHeat shock protein HSP 90-alpha/0.446
1vj3TABDihydrofolate reductase1.5.1.30.446
2r0pK2CPutative FAD-monooxygenase/0.446
2ycfYCFSerine/threonine-protein kinase Chk22.7.11.10.446
2ykiYKIHeat shock protein HSP 90-alpha/0.446
3fowIMHPurine nucleoside phosphorylase/0.446
3nrrD16Bifunctional dihydrofolate reductase-thymidylate synthase/0.446
3sgy06WDihydrofolate reductase1.5.1.30.446
4equG6ISerine/threonine-protein kinase 102.7.11.10.446
4f1sF1SPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
4giu636Anthranilate phosphoribosyltransferase/0.446
4jrnANPRhoptry kinase family protein/0.446
4l9kEHFSerum albumin/0.446
4luxQJ8Nitric oxide synthase, brain1.14.13.390.446
1cbsREACellular retinoic acid-binding protein 2/0.445
1eqbFFOSerine hydroxymethyltransferase2.1.2.10.445
1hckATPCyclin-dependent kinase 22.7.11.220.445
1uaeUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.445
3c34KAIGlutamate receptor ionotropic, kainate 1/0.445
3orkAGSSerine/threonine protein kinase/0.445
3qcs3Q13-phosphoinositide-dependent protein kinase 12.7.11.10.445
3zsgT75Mitogen-activated protein kinase 14/0.445
4e730NRMitogen-activated protein kinase 82.7.11.240.445
5cvhADPCasein kinase II subunit alpha2.7.11.10.445
5dr2ATPAurora kinase A2.7.11.10.445
3emlZMAAdenosine receptor A2a/0.445
2a5kAZPReplicase polyprotein 1ab3.4.220.444
2b9jADPMitogen-activated protein kinase FUS32.7.11.240.444
2qg2A91Heat shock protein HSP 90-alpha/0.444
2rkuR78Serine/threonine-protein kinase PLK12.7.11.210.444
2yvwEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.444
3hu3AGSTransitional endoplasmic reticulum ATPase3.6.4.60.444
3otqMZLBifunctional epoxide hydrolase 23.3.2.100.444
3q44D50M1 family aminopeptidase3.4.110.444
3srsM23Dihydrofolate reductase1.5.1.30.444
4xbaGMPAprataxin-like protein30.444
4y0xADPSerine/threonine-protein kinase PknG2.7.11.10.444
5ackATP3-phosphoinositide-dependent protein kinase 12.7.11.10.444
1crbRTLRetinol-binding protein 1/0.443
1hk5T44Serum albumin/0.443
1q6t600Tyrosine-protein phosphatase non-receptor type 13.1.3.480.443
1vbiNADMalate/L-lactate dehydrogenase family protein/0.443
2ejzSAHDiphthine synthase/0.443
2g78REACellular retinoic acid-binding protein 2/0.443
2i0zFADNAD(FAD)-utilizing dehydrogenases/0.443
2wuuNHWGlycylpeptide N-tetradecanoyltransferase/0.443
3a8tATPAdenylate isopentenyltransferase/0.443
3x025GPPhosphatidylinositol 5-phosphate 4-kinase type-2 beta2.7.1.1490.443
3zs5SB2Mitogen-activated protein kinase 14/0.443
4caxMYAGlycylpeptide N-tetradecanoyltransferase2.3.1.970.443
4jseQJ2Nitric oxide synthase, brain1.14.13.390.443
4kuhCAA3-hydroxybutyryl-CoA dehydrogenase/0.443
4zohFADPutative oxidoreductase FAD-binding subunit/0.443
1a4zNADAldehyde dehydrogenase, mitochondrial1.2.1.30.442
1e90MYCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
1uyfPU1Heat shock protein HSP 90-alpha/0.442
2acwUPGGlycosyltransferase/0.442
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
2ptfFMNUncharacterized protein MTH_863/0.442
2zsdCOAPantothenate kinase2.7.1.330.442
3d78NBBPheromone-binding protein ASP1/0.442
3q30D61Squalene synthase2.5.1.210.442
3sh25DRDihydrofolate reductase1.5.1.30.442
4b4w9L9Bifunctional protein FolD/0.442
4fxfATPPyruvate kinase PKM2.7.1.400.442
4gqkADPActin cross-linking toxin VgrG1/0.442
4h3g10QBeta-secretase 13.4.23.460.442
4hsuFADLysine-specific histone demethylase 1B10.442
5irnADPNucleotide binding oligomerization domain containing 2/0.442
1e8wQUEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
1jnkANPMitogen-activated protein kinase 102.7.11.240.441
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.441
2iorADPChaperone protein HtpG/0.441
2nomDUTPoly(A) polymerase, putative/0.441
2r8pT6FTransketolase 1/0.441
2zrvFNRIsopentenyl-diphosphate delta-isomerase/0.441
3adaNADSubunit alpha of sarocosine oxidase/0.441
3gnvXNZGenome polyprotein2.7.7.480.441
3ibdCPZCytochrome P450 2B61.14.130.441
3l3rOAGDihydrofolate reductase1.5.1.30.441
3r6c17NAnthranilate phosphoribosyltransferase/0.441
4bixADPSensor histidine kinase CpxA/0.441
4g95OAGDihydrofolate reductase1.5.1.30.441
4i8pNADAminoaldehyde dehydrogenase 1/0.441
4lfiGNPCasein kinase II subunit alpha2.7.11.10.441
1csnATPCasein kinase I homolog 12.7.11.10.440
1hsgMK1Gag-Pol polyprotein/0.440
1ig1ANPDeath-associated protein kinase 12.7.11.10.440
2g8yNADHydroxycarboxylate dehydrogenase B/0.440
2rjp886A disintegrin and metalloproteinase with thrombospondin motifs 43.4.24.820.440
2yjxYJXHeat shock protein HSP 90-alpha/0.440
2ykjYKJHeat shock protein HSP 90-alpha/0.440
3r8814FAnthranilate phosphoribosyltransferase/0.440
3sruQ26Dihydrofolate reductase1.5.1.30.440
4awp99AHeat shock protein HSP 90-alpha/0.440
4b8mVX6Aurora kinase B-A2.7.11.10.440
4ixd1HVIntegrin alpha-L/0.440
4y12AGSSerine/threonine-protein kinase PknG2.7.11.10.440